family · mtDNA statistics
Colubridae
8 species in 6 genera. Every region of their mitochondrial genomes, side by side.
8
species
39.6%
mean GC, whole genome
SD 1.5, range 37.2–41.8%
17,186
median genome length, bp
Range 17,142–17,706 bp
6
genera
Regions
GC content of each region across Colubridae, % of A + C + G + T| Region | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Whole genome | 8 | 39.62% | 1.55 | 37.15%Ptyas mucosa | 39.33% | 41.84%Nerodia sipedon | −0.28 | 0.5 | |
| Protein-coding | 8 | 39.24% | 1.97 | 36.17%Ptyas mucosa | 38.82% | 42.20%Nerodia sipedon | −0.28 | 0.5 | |
| All rRNA | 8 | 40.67% | 0.89 | 39.21%Ptyas mucosa | 40.73% | 41.80%Nerodia sipedon | −0.21 | 0.61 | |
| All tRNA | 8 | 41.20% | 0.55 | 40.21%Elaphe schrenckii | 41.46% | 41.71%Hypsiglena torquata | 0.00 | 1 | |
| 12S rRNA | 8 | 43.50% | 0.54 | 42.72%Elaphe moellendorffi | 43.71% | 44.09%Hypsiglena torquata | −0.31 | 0.46 | |
| 16S rRNA | 8 | 38.89% | 1.18 | 36.95%Ptyas mucosa | 38.78% | 40.54%Nerodia sipedon | −0.17 | 0.69 | |
| D-loop | 7 | 39.25% | 1.33 | 37.72%Ptyas mucosa | 39.00% | 41.61%Nerodia sipedon | −0.55 | 0.2 | |
| ND1 | 8 | 40.42% | 2.11 | 38.22%Ptyas mucosa | 40.42% | 44.09%Nerodia sipedon | −0.08 | 0.84 | |
| ND2 | 8 | 38.14% | 2.15 | 33.98%Ptyas mucosa | 38.65% | 40.12%Nerodia sipedon | −0.32 | 0.44 | |
| COX1 | 8 | 41.69% | 1.62 | 39.64%Ptyas mucosa | 41.08% | 44.18%Lycodon rufozonatus | −0.19 | 0.65 | |
| COX2 | 8 | 42.43% | 1.96 | 40.00%Ptyas mucosa | 42.19% | 45.11%Nerodia sipedon | −0.18 | 0.67 | |
| ATP8 | 8 | 31.97% | 3.60 | 27.67%Elaphe moellendorffi | 31.41% | 37.58%Nerodia sipedon | −0.44 | 0.28 | |
| ATP6 | 8 | 37.79% | 3.38 | 32.45%Ptyas mucosa | 38.25% | 41.85%Nerodia sipedon | −0.09 | 0.83 | |
| COX3 | 8 | 42.35% | 1.96 | 39.54%Ptyas mucosa | 42.09% | 45.15%Nerodia sipedon | −0.20 | 0.63 | |
| ND3 | 8 | 38.37% | 3.36 | 33.53%Ptyas mucosa | 39.50% | 42.86%Nerodia sipedon | −0.54 | 0.17 | |
| ND4L | 8 | 35.18% | 3.20 | 30.93%Coluber constrictor | 34.88% | 39.86%Nerodia sipedon | 0.03 | 0.94 | |
| ND4 | 8 | 39.22% | 1.75 | 37.37%Ptyas mucosa | 38.75% | 42.26%Nerodia sipedon | −0.35 | 0.39 | |
| ND5 | 8 | 37.17% | 2.43 | 34.13%Ptyas mucosa | 37.07% | 41.02%Nerodia sipedon | −0.46 | 0.25 | |
| ND6 | 8 | 35.46% | 2.42 | 30.74%Ptyas mucosa | 35.13% | 38.15%Lycodon rufozonatus | 0.03 | 0.94 | |
| CYTB | 8 | 39.63% | 1.86 | 36.26%Ptyas mucosa | 39.72% | 42.59%Hypsiglena torquata | −0.27 | 0.52 |
Genera of Colubridae
GC content of the whole genome, % of A + C + G + T| Elaphe | 3 | 39.03% | 0.60 | 38.54%Elaphe moellendorffi | 38.85% | 39.70%Elaphe taeniura | – | – | |
| Hypsiglena | 1 | 41.04% | – | 41.04%Hypsiglena torquata | 41.04% | 41.04%Hypsiglena torquata | – | – | |
| Nerodia | 1 | 41.84% | – | 41.84%Nerodia sipedon | 41.84% | 41.84%Nerodia sipedon | – | – | |
| Coluber | 1 | 38.95% | – | 38.95%Coluber constrictor | 38.95% | 38.95%Coluber constrictor | – | – | |
| Ptyas | 1 | 37.15% | – | 37.15%Ptyas mucosa | 37.15% | 37.15%Ptyas mucosa | – | – | |
| Lycodon | 1 | 40.85% | – | 40.85%Lycodon rufozonatus | 40.85% | 40.85%Lycodon rufozonatus | – | – |
Codon usage
Share of each codon in all 13 protein-coding genes, across ColubridaeLoading codon usage…
Every species, region by region
Each region's page lists the value of every species, with the same statistics by class, order or family and a CSV download.
The charts
- Each chart draws the rows of the table under it, in the table's order: sort a column to reorder the chart.Chart sets its axis.
- Distribution: the range (line), mean ± SD (bar), median (tick) and mean (dot). Lengths of the regions are on a log scale.
- Variation: the coefficient of variation, or the SD for the skews, which vary around zero.
- Lifespan r: r with its 95% confidence interval (Fisher z). Lifespan map: r of every parameter in every region at once, bold where the Benjamini–Hochberg q-value over the map is below 0.05.
What the numbers are
- Species: species with the region annotated. SD is the sample standard deviation, CV = SD / mean.
- Base percentages are over A + C + G + T, so GC % + AT % = 100. Skews are on the L strand as deposited in RefSeq: GC skew = (G − C) / (G + C), AT skew = (A − T) / (A + T).
- Min and Max name the species with the extreme value.
Lifespan columns
r is the Pearson correlation of the parameter with log10 maximum lifespan within the group (5 or more species), and p its two-tailed p-value, as on the original MitoAge. They are not corrected for multiple testing or for shared ancestry: the plot shows Benjamini–Hochberg q-values and phylogenetic contrasts.
The original site labelled the base columns with their complements, so its skews have the opposite sign. Seemethods.